# Animal Movement Tools

## Documentation for package ‘amt’ version 0.1.4

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

A B C D E F G H I L M N O P R S T U V

amt-package | amt: Animal Movement Tools

## -- A --

amt | amt: Animal Movement Tools
amt_fisher | GPS tracks from four fishers
amt_fisher_covar | Environmental data for fishers
append_x1 | Append "_x1"
as_bcpa | Coerce a track to other formats.
as_bcpa.track_xyt | Coerce a track to other formats.
as_degree | Converts angles to radians
as_ltraj | Coerce a track to other formats.
as_ltraj.track_xy | Coerce a track to other formats.
as_ltraj.track_xyt | Coerce a track to other formats.
as_move | Coerce a track to other formats.
as_move.track_xyt | Coerce a track to other formats.
as_moveHMM | Coerce a track to other formats.
as_moveHMM.track_xy | Coerce a track to other formats.
as_rad | Converts angles to radians
as_sf_lines | Export track to lines
as_sf_points | Export track to points
as_sp | Coerce a track to other formats.
as_sp.steps_xy | Coerce a track to other formats.
as_telemetry | Coerce a track to other formats.
as_telemetry.track_xyt | Coerce a track to other formats.
as_track | Coerce to track
as_track.sfc_POINT | Coerce to track
as_track.SpatialPoints | Coerce to track
as_track.steps_xyt | Coerce to track
available_distr | Display available distributions for step lengths and turn angles.

## -- B --

bbox | Get bounding box of a track.
bbox.steps_xy | Get bounding box of a track.
bbox.track_xy | Get bounding box of a track.

## -- C --

centroid | Calculate the centroid of a track.
centroid.track_xy | Calculate the centroid of a track.
coercion | Coerce a track to other formats.
convert_angles | Converts angles to radians
coords | Coordinates of a track.
coords.track_xy | Coordinates of a track.
crs | Coordinate References System (CRS)
cum_dist | Movement metrics
cum_ud | Calculate a cumulative UD

## -- D --

deer | Relocations of 1 red deer
diff_x | Track Methods
diff_x.track_xy | Track Methods
diff_y | Track Methods
diff_y.track_xy | Track Methods
direction_abs | Functions to create and work with steps
direction_abs.track_xy | Functions to create and work with steps
direction_rel | Functions to create and work with steps
direction_rel.track_xy | Functions to create and work with steps
dispersal_kernel | Create a dispersal kernel
distance_to_center | Distance to center
distance_to_center.numeric | Distance to center
distance_to_center.track_xy | Distance to center
distance_to_centers | Distance to center
distance_to_centers.track_xy | Distance to center
distributions | Functions to work with distributions as objects
distr_name | Name of step-length distribution and turn-angle distribution
dist_cent | Distance to center

## -- E --

extent_both | Coordinates of a track.
extent_both.track_xy | Coordinates of a track.
extent_max | Coordinates of a track.
extent_max.track_xy | Coordinates of a track.
extent_x | Coordinates of a track.
extent_x.track_xy | Coordinates of a track.
extent_y | Coordinates of a track.
extent_y.track_xy | Coordinates of a track.
extract_covariates | Extract covariate values
extract_covariates.random_points | Extract covariate values
extract_covariates.steps_xy | Extract covariate values
extract_covariates.track_xy | Extract covariate values
extract_covariates_along | Extract covariate values
extract_covariates_along.steps_xy | Extract covariate values
extract_covariates_var_time | Extract covariate values
extract_covariates_var_time.steps_xyt | Extract covariate values
extract_covariates_var_time.track_xyt | Extract covariate values

## -- F --

filter_min_n_burst | Filter bursts by number of relocations
filter_min_n_burst.track_xy | Filter bursts by number of relocations
fit_clogit | Fit a conditional logistic regression
fit_ctmm | Fit a continuous time movement model with 'ctmm'
fit_distr | Fit distribution to data
fit_issf | Fit a conditional logistic regression
fit_logit | Fit logistic regression
fit_rsf | Fit logistic regression
fit_ssf | Fit a conditional logistic regression
from | Duration of tracks
from.track_xyt | Duration of tracks
from_to | Duration of tracks
from_to.track_xyt | Duration of tracks

## -- G --

get_crs | Coordinate References System (CRS)
get_distr | Get distribution and parameters

## -- H --

habitat_kernel | Simulate UD from fitted SSF
has_crs | Coordinate References System (CRS)
helper | Coordinates of a track.
hr | Home ranges
hr_akde | Home ranges
hr_akde.track_xyt | Home ranges
hr_area | Home ranges
hr_area.akde | Home ranges
hr_area.hr | Home ranges
hr_cud | Calculate a cumulative UD
hr_cud.RasterLayer | Calculate a cumulative UD
hr_isopleths | Home ranges
hr_kde | Home ranges
hr_kde.track_xy | Home ranges
hr_kde_lscv | Home ranges
hr_kde_pi | Home ranges
hr_kde_pi.track_xy | Home ranges
hr_kde_ref | Home ranges
hr_kde_ref.track_xy | Home ranges
hr_kde_ref_scaled | Select a bandwidth for Kernel Density Estimation
hr_locoh | Home ranges
hr_locoh.track_xy | Home ranges
hr_mcp | Home ranges
hr_mcp.track_xy | Home ranges
hr_od | Home ranges
hr_od.track_xyt | Home ranges
hr_overlap | Different Methods to calculate home-range overlaps
hr_overlap.hr | Different Methods to calculate home-range overlaps
hr_overlap.list | Different Methods to calculate home-range overlaps
hr_overlaps | Different Methods to calculate home-range overlaps
hr_overlap_feature | Calculate the overlap between a home-range estimate and a polygon
hr_to_sf | Convert
hr_to_sf.tbl_df | Convert
hr_ud | Obtain the utilization distribution of a probabilistic home range

## -- I --

inspect | Inspect a track
inspect.track_xy | Inspect a track
intensity_use | Movement metrics

## -- L --

log_rss | Calculate log-RSS for a fitted model
log_rss.fit_clogit | Calculate log-RSS for a fitted model
log_rss.glm | Calculate log-RSS for a fitted model

## -- M --

make_distribution | Functions to work with distributions as objects
make_exp_distr | Functions to work with distributions as objects
make_gamma_distr | Functions to work with distributions as objects
make_track | Create a track_*
make_trast | Coordinates of a track.
make_trast.track_xy | Coordinates of a track.
make_unif_distr | Functions to work with distributions as objects
make_vonmises_distr | Functions to work with distributions as objects
mk_track | Create a track_*
movement_kernel | Simulate UD from fitted SSF
movement_metrics | Movement metrics
msd | Movement metrics

## -- N --

nsd | Track Methods
nsd.track_xy | Track Methods

## -- O --

od | Occurrence Distribution
od.track_xyt | Occurrence Distribution

## -- P --

params | Get parameters from a (fitted) distribution
plot.log_rss | Plot a 'log_rss' object
plot_sl | Plot step-length distribution
plot_sl.fit_clogit | Plot step-length distribution
plot_sl.random_steps | Plot step-length distribution

## -- R --

random_numbers | Functions to work with distributions as objects
random_numbers.amt_distr | Functions to work with distributions as objects
random_numbers.vonmises_distr | Functions to work with distributions as objects
random_points | Generate random points
random_points.hr | Generate random points
random_points.sf | Generate random points
random_points.SpatialPolygons | Generate random points
random_points.track_xy | Generate random points
random_steps | Generate Random Steps
random_steps.numeric | Generate Random Steps
random_steps.steps_xy | Generate Random Steps
range_both | Coordinates of a track.
range_both.track_xy | Coordinates of a track.
range_x | Coordinates of a track.
range_x.track_xy | Coordinates of a track.
range_y | Coordinates of a track.
range_y.track_xy | Coordinates of a track.
remove_capture | Removes Capture Effects
remove_capture_effect | Removes Capture Effects
remove_capture_effect.track_xyt | Removes Capture Effects
rolling_od | Occurrence Distribution
rolling_od.track_xyt | Occurrence Distribution

## -- S --

sh | Relocations of 1 red deer
sh_forest | Forest cover
simulate_tud | Simulate UD from fitted SSF
simulate_ud | Simulate UD from fitted SSF
simulate_ud_from_dk | Simulate a UD from a dispersal kernel
simulate_xy | Simulate a trajectory
sim_ud | Simulate UD from fitted SSF
sinuosity | Movement metrics
site_fidelity | Test for site fidelity of animal movement.
site_fidelity.steps_xy | Test for site fidelity of animal movement.
sl_distr | Get distribution and parameters
sl_distr.fit_clogit | Get distribution and parameters
sl_distr.random_steps | Get distribution and parameters
sl_distr_name | Name of step-length distribution and turn-angle distribution
sl_distr_name.fit_clogit | Name of step-length distribution and turn-angle distribution
sl_distr_name.random_steps | Name of step-length distribution and turn-angle distribution
sl_distr_params | Get parameters from a (fitted) distribution
sl_distr_params.fit_clogit | Get parameters from a (fitted) distribution
sl_distr_params.random_steps | Get parameters from a (fitted) distribution
speed | Speed
speed.track_xyt | Speed
steps | Functions to create and work with steps
steps.track_xy | Functions to create and work with steps
steps.track_xyt | Functions to create and work with steps
steps_by_burst | Functions to create and work with steps
steps_by_burst.track_xyt | Functions to create and work with steps
step_lengths | Functions to create and work with steps
step_lengths.track_xy | Functions to create and work with steps
straightness | Movement metrics
summarize_sampling_rate | Returns a summary of sampling rates
summarize_sampling_rate.track_xyt | Returns a summary of sampling rates
summarize_sampling_rate_many | Returns a summary of sampling rates
summarize_sampling_rate_many.track_xyt | Returns a summary of sampling rates

## -- T --

tac | Movement metrics
ta_distr | Get distribution and parameters
ta_distr.fit_clogit | Get distribution and parameters
ta_distr.random_steps | Get distribution and parameters
ta_distr_name | Name of step-length distribution and turn-angle distribution
ta_distr_name.fit_clogit | Name of step-length distribution and turn-angle distribution
ta_distr_name.random_steps | Name of step-length distribution and turn-angle distribution
ta_distr_params | Get parameters from a (fitted) distribution
ta_distr_params.fit_clogit | Get parameters from a (fitted) distribution
ta_distr_params.random_steps | Get parameters from a (fitted) distribution
time_of_day | Time of the day when a fix was taken
time_of_day.steps_xyt | Time of the day when a fix was taken
time_of_day.track_xyt | Time of the day when a fix was taken
to | Duration of tracks
to.track_xyt | Duration of tracks
tot_dist | Movement metrics
track | Create a track_*
track_align | Selects relocations that fit a new time series
track_align.track_xyt | Selects relocations that fit a new time series
track_methods | Track Methods
track_resample | Resample track
track_resample.track_xyt | Resample track
transform_coords | Transform CRS
transform_coords.track_xy | Transform CRS
transform_crs | Transform CRS

## -- U --

update_distr_man | Manually update 'amt_distr'
update_exp | Manually update 'amt_distr'
update_gamma | Manually update 'amt_distr'
update_sl_distr | Update movement distributions
update_ta_distr | Update movement distributions
update_vonmises | Manually update 'amt_distr'

## -- V --

velocity | Track Methods
velocity.track_xyt | Track Methods